Protein
About this network
This undirected network contains protein interactions contained in yeast. Research showed that proteins with a high degree were more important for the surivial of the yeast than others. A node represents a protein and an edge represents a metabolic interaction between two proteins. The network contains loops.
Network info
Code | Mp |
Category | ⬤ Metabolic |
Data source | http://moreno.ss.uci.edu/data.html#pro-pro |
Vertex type | Protein |
Edge type | Interaction |
Format | Undirected |
Edge weights | Unweighted |
Metadata | Loop |
Size | 1,870 vertices (proteins) |
Volume | 2,277 edges (interactions) |
Average degree | 2.4353 edges / vertex |
Fill | 0.0013016 edges / vertex^{2} |
Maximum degree | 56 edges |
Size of LCC | 1,458 vertices |
Wedge count | 12,107 |
Claw count | 75,064 |
Triangle count | 222 |
Square count | 461 |
4-tour count | 56,522 |
Power law exponent (estimated) with d_{min} | 3.0410 (d_{min} = 5) |
Gini coefficient | 44.9% |
Relative edge distribution entropy | 94.3% |
Assortativity | –0.16153 |
Clustering coefficient | 5.50% |
Diameter | 19 edges |
90-percentile effective diameter | 9.59 edges |
Mean shortest path length | 7.07 edges |
Spectral norm | 7.5619 |
Algebraic connectivity | 0.021259 |
Downloads
TSV file: | moreno_propro.tar.bz2 (9.00 KiB) |
Extraction code: | moreno.tar.bz2 (21.10 KiB) |
References
[1] | Protein network dataset -- KONECT, October 2016. [ http ] |
[2] | Stéphane Coulomb, Michel Bauer, Denis Bernard, and Marie-Claude Marsolier-Kergoat. Gene essentiality and the topology of protein interaction networks. Proceedings of the Royal Society B: Biological Sciences, 272(1573):1721--1725, 2005. |
[3] | Jing-Dong J Han, Denis Dupuy, Nicolas Bertin, Michael E Cusick, and Marc Vidal. Effect of sampling on topology predictions of protein-protein interaction networks. Nature Biotechnology, 23(7):839--844, 2005. |
[4] | Michael PH Stumpf, Carsten Wiuf, and Robert M May. Subnets of scale-free networks are not scale-free: Sampling properties of networks. Proceedings of the National Academy of Sciences of the United States of America, 102(12):4221--4224, 2005. |